miRNA display CGI


Results 1 - 20 of 30 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11990 3' -57.6 NC_003278.1 + 17101 1.08 0.000329
Target:  5'- uCACCAACGUGCAGGCUGCCAUCGGCAa -3'
miRNA:   3'- -GUGGUUGCACGUCCGACGGUAGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 19251 0.73 0.136666
Target:  5'- aCGCgCAGC-UGCAGGUcauucGCCAUCGGCGg -3'
miRNA:   3'- -GUG-GUUGcACGUCCGa----CGGUAGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 13096 0.73 0.153149
Target:  5'- gCGCCcgcuCGcGCAGGCUGUCGUCGGa- -3'
miRNA:   3'- -GUGGuu--GCaCGUCCGACGGUAGCCgu -5'
11990 3' -57.6 NC_003278.1 + 20889 0.73 0.157542
Target:  5'- uGCCGGCGagggugaugGCaAGGCUGCCAaCGGUAg -3'
miRNA:   3'- gUGGUUGCa--------CG-UCCGACGGUaGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 8796 0.71 0.196964
Target:  5'- gGCCAGgGUcuuCGGGCcagcgaUGCCAUCGGCGa -3'
miRNA:   3'- gUGGUUgCAc--GUCCG------ACGGUAGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 7429 0.71 0.196964
Target:  5'- gUACCAGCG-GUAGcGCUcgGCCAcuUCGGCGg -3'
miRNA:   3'- -GUGGUUGCaCGUC-CGA--CGGU--AGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 14814 0.7 0.231951
Target:  5'- -cCCAGCGUGguCGGGUUGCUGcCGGCGg -3'
miRNA:   3'- guGGUUGCAC--GUCCGACGGUaGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 22064 0.7 0.238268
Target:  5'- -cCCGGCGUGCu-GCUGCCGgagcuggcCGGCAg -3'
miRNA:   3'- guGGUUGCACGucCGACGGUa-------GCCGU- -5'
11990 3' -57.6 NC_003278.1 + 28484 0.69 0.279226
Target:  5'- cCACCAGacgcCGcGCGGGCUGUCGccCGGCu -3'
miRNA:   3'- -GUGGUU----GCaCGUCCGACGGUa-GCCGu -5'
11990 3' -57.6 NC_003278.1 + 22281 0.69 0.279226
Target:  5'- cCGCC-----GCGGGgUGCCGUCGGCGa -3'
miRNA:   3'- -GUGGuugcaCGUCCgACGGUAGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 4781 0.69 0.286574
Target:  5'- gGCCGACcaaGUAGGCcuUGCCGgugUCGGCGa -3'
miRNA:   3'- gUGGUUGca-CGUCCG--ACGGU---AGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 22822 0.69 0.286574
Target:  5'- gCGCCGGCGcugGCGGGcCUGCCgAUCcuGCAg -3'
miRNA:   3'- -GUGGUUGCa--CGUCC-GACGG-UAGc-CGU- -5'
11990 3' -57.6 NC_003278.1 + 29873 0.68 0.309528
Target:  5'- cCGCCGGCGcgGCuguugucGCUGCgGUCGGCc -3'
miRNA:   3'- -GUGGUUGCa-CGuc-----CGACGgUAGCCGu -5'
11990 3' -57.6 NC_003278.1 + 11855 0.68 0.332192
Target:  5'- gACCGGCGaccugcugaccgGCuGGCUGCCuUgGGCAu -3'
miRNA:   3'- gUGGUUGCa-----------CGuCCGACGGuAgCCGU- -5'
11990 3' -57.6 NC_003278.1 + 19788 0.68 0.342272
Target:  5'- gGCCAGCGcgGCAGcGCucuggaUGCCG-CGGCu -3'
miRNA:   3'- gUGGUUGCa-CGUC-CG------ACGGUaGCCGu -5'
11990 3' -57.6 NC_003278.1 + 29804 0.68 0.342272
Target:  5'- aGCCAGCGgcGCAGGCccGCC-UUGGUc -3'
miRNA:   3'- gUGGUUGCa-CGUCCGa-CGGuAGCCGu -5'
11990 3' -57.6 NC_003278.1 + 3558 0.67 0.350839
Target:  5'- gCACCAACGcGCggacugcccaGGGCUaCCA-CGGCAa -3'
miRNA:   3'- -GUGGUUGCaCG----------UCCGAcGGUaGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 22383 0.67 0.359558
Target:  5'- uCACaggauGCGUcucaGCAGGUUGCCggCGGUAc -3'
miRNA:   3'- -GUGgu---UGCA----CGUCCGACGGuaGCCGU- -5'
11990 3' -57.6 NC_003278.1 + 29424 0.67 0.359558
Target:  5'- uCGCCcagAACGUaGCAGGCaUGCUccCGGCu -3'
miRNA:   3'- -GUGG---UUGCA-CGUCCG-ACGGuaGCCGu -5'
11990 3' -57.6 NC_003278.1 + 8881 0.67 0.368426
Target:  5'- uCGCCAGCG-GCAGGUcgagGCgAgcucCGGCGg -3'
miRNA:   3'- -GUGGUUGCaCGUCCGa---CGgUa---GCCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.